filter_blacklist

Filter out reads that align to an index

nf-core subworkflows \
  --git-remote https://github.com/CCBR/nf-modules \
  install filter/blacklist

https://github.com/CCBR/nf-modules/tree/main/subworkflows/CCBR/filter_blacklist/

Input

name	type	description
ch_fastq_input	map	A channel containing fastq files
ch_blacklist_index	file	A BWA index created by running BWA/INDEX on a fasta file of blacklisted regions/

Output

name	type	description	pattern
reads	map	Reads from the fastq files that do not align to the blacklist	NA
versions	file	File containing software versions	versions.yml